Multi-omics analysis of ten carbon nanomaterials effects highlights cell type specific patterns of molecular regulation and adaptation

NanoImpact
Giovanni ScalaDario Greco

Abstract

New strategies to characterize the effects of engineered nanomaterials (ENMs) based on omics technologies are emerging. However, given the intricate interplay of multiple regulatory layers, the study of a single molecular species in exposed biological systems might not allow the needed granularity to successfully identify the pathways of toxicity (PoT) and, hence, portraying adverse outcome pathways (AOPs). Moreover, the intrinsic diversity of different cell types composing the exposed organs and tissues in living organisms poses a problem when transferring in vivo experimentation into cell-based in vitro systems. To overcome these limitations, we have profiled genome-wide DNA methylation, mRNA and microRNA expression in three human cell lines representative of relevant cell types of the respiratory system, A549, BEAS-2B and THP-1, exposed to a low dose of ten carbon nanomaterials (CNMs) for 48 h. We applied advanced data integration and modelling techniques in order to build comprehensive regulatory and functional maps of the CNM effects in each cell type. We observed that different cell types respond differently to the same CNM exposure even at concentrations exerting similar phenotypic effects. Furthermore, we linked pattern...Continue Reading

Citations

Apr 7, 2020·Small·Pia Anneli Sofia KinaretDario Greco
Feb 9, 2020·Archives of Toxicology·Sebastian CanzlerJörg Hackermüller
Apr 1, 2020·Computational and Structural Biotechnology Journal·Antreas AfantitisIseult Lynch
Jan 15, 2021·Biomaterials Science·Farooq AhmadTahir Muhmood
Dec 16, 2020·International Journal of Molecular Sciences·Isabel KarkossaKristin Schubert
May 25, 2021·Advanced Science·Pia A S KinaretHarri Alenius

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Datasets Mentioned

BETA
E-MTAB-6396
E-MTAB-6397

Methods Mentioned

BETA
FCS
PMA
Assay
feature extraction

Software Mentioned

clusterProfiler package
Agilent
ArrayExpress
infotheo
Excel
SVA
ComBat
ENM MOA
targetScan
MOA

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